Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113428
Name   oriT_pESI-CTX-M-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Infantis isolate 16092401-41
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW849833 (233863..233951 [+], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_pESI-CTX-M-1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8606 GenBank   WP_001299212
Name   nikB_NH400_RS01130_pESI-CTX-M-1 insolico UniProt ID   A0A5T4AK12
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103956.40 Da        Isoelectric Point: 7.2642

>WP_001299212.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWINFYGVTCFHNCTSLETAAADMEYIALQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVSDWLSLHRRLAEDGLYLSQMDGK
YLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWLPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A5T4AK12


Auxiliary protein

ID   4997 GenBank   WP_001283947
Name   WP_001283947_pESI-CTX-M-1 insolico UniProt ID   A0A142CMC2
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12613.57 Da        Isoelectric Point: 10.7463

>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A142CMC2


T4CP

ID   9940 GenBank   WP_001289276
Name   trbC_NH400_RS01125_pESI-CTX-M-1 insolico UniProt ID   _
Length   763 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 763 a.a.        Molecular weight: 86941.11 Da        Isoelectric Point: 6.7713

>WP_001289276.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 192343..228485

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NH400_RS00920 187405..188472 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
NH400_RS00925 188472..188909 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
NH400_RS00930 188923..190605 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NH400_RS00935 190598..191893 + 1296 WP_001545757 type 4b pilus protein PilO2 -
NH400_RS00940 191880..192332 + 453 WP_001247331 type IV pilus biogenesis protein PilP -
NH400_RS00945 192343..193896 + 1554 WP_000362206 GspE/PulE family protein virB11
NH400_RS00950 193909..194994 + 1086 WP_001208802 type II secretion system F family protein -
NH400_RS00955 195011..195625 + 615 WP_000908226 type 4 pilus major pilin -
NH400_RS00960 195635..196195 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
NH400_RS00965 196180..196836 + 657 WP_001193549 A24 family peptidase -
NH400_RS00970 196836..198128 + 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NH400_RS00975 198184..198309 - 126 Protein_202 RNA-guided endonuclease TnpB family protein -
NH400_RS00980 198517..199341 + 825 WP_001238942 conjugal transfer protein TraE traE
NH400_RS00985 199427..200629 + 1203 WP_000976348 conjugal transfer protein TraF -
NH400_RS00990 200689..201273 + 585 WP_000977522 histidine phosphatase family protein -
NH400_RS00995 201668..202126 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NH400_RS01000 202123..202941 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
NH400_RS01005 202938..204086 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NH400_RS01010 204083..204373 + 291 WP_001299214 hypothetical protein traK
NH400_RS01015 204388..204939 + 552 WP_000014584 phospholipase D family protein -
NH400_RS01020 205029..208796 + 3768 WP_001141542 LPD7 domain-containing protein -
NH400_RS01025 208814..209161 + 348 WP_001055900 conjugal transfer protein traL
NH400_RS01030 209158..209850 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
NH400_RS01035 209861..210844 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
NH400_RS01040 210847..212136 + 1290 WP_001271997 conjugal transfer protein TraO traO
NH400_RS01045 212136..212840 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
NH400_RS01050 212840..213367 + 528 WP_001055569 conjugal transfer protein TraQ traQ
NH400_RS01055 213418..213822 + 405 WP_000086961 IncI1-type conjugal transfer protein TraR traR
NH400_RS01060 213886..214074 + 189 WP_001277255 putative conjugal transfer protein TraS -
NH400_RS01065 214058..214858 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NH400_RS01070 214948..217992 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
NH400_RS01075 217992..218606 + 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
NH400_RS01080 218573..219775 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
NH400_RS01085 219804..220388 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
NH400_RS01090 220485..222653 + 2169 WP_000698357 DotA/TraY family protein traY
NH400_RS01095 222727..223377 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
NH400_RS01100 223449..223658 - 210 WP_000062603 HEAT repeat domain-containing protein -
NH400_RS01105 224050..224226 + 177 WP_001054904 hypothetical protein -
NH400_RS01495 224291..224386 - 96 WP_001303310 DinQ-like type I toxin DqlB -
NH400_RS01110 225018..225926 + 909 WP_000055084 hypothetical protein -
NH400_RS01115 226188..227396 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
NH400_RS01120 227415..228485 + 1071 WP_000151577 IncI1-type conjugal transfer protein TrbB trbB
NH400_RS01125 228478..230769 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   13863 GenBank   NZ_OW849833
Plasmid name   pESI-CTX-M-1 Incompatibility group   IncFIB
Plasmid size   289917 bp Coordinate of oriT [Strand]   233863..233951 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Infantis isolate 16092401-41

Cargo genes

Drug resistance gene   blaCTX-M-1, dfrA1, qacE, sul1, tet(A), dfrA14, aph(3')-Ia
Virulence gene   faeC, faeD, faeE, faeF, faeH, faeI, fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -